Sample Resequencing Stats

Note: The mutation counts shown below represent unfiltered mutation sets.

ALE, Flask, Isolate	Predicted Mutations	Mean Coverage	Total Reads	Percent Mapped	Mapped Reads	Average Read Length
A9 F1 I1 R1	759	71.0	3673240	91.5%	3361014	104.6

Breseq alignment

BRESEQ :: Evidence

Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	1,387,095	G→A	A126T (GCA→ACA)	tyrR →	aromatic amino acid biosynthesis and transport regulon transcriptional regulator, autorepressor, ATPase, phosphatase

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	1,387,095	0	G	A	100.0%	87.0 / NA	28	A126T (GCA→ACA)	tyrR	aromatic amino acid biosynthesis and transport regulon transcriptional regulator, autorepressor, ATPase, phosphatase
Reads supporting (aligned to +/- strand): ref base G (0/0); new base A (14/14); total (14/14)

GCGCGTTACTGGAGGCGTTGCCTGAACCTGTGCTCTCTGTCGATATGAAAAGCAAAGTGGATATGGCGAACCCGGCGAGCTGTCAGCTTTTTGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCGCACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGATTCGCATAACGAGCATGTCGTTATTAATGGGCAGAATTTCCTGATGGAGATTACGCCTGTTTATCTTCAGGATGAAA  >  NC_000913/1386967‑1387227

gcgcGTTACTGGAGGCGTTGCCTGAACCTGTGCTCTCTGTCGATATGAAAAGCAAAGTGGATATGGCGAACCCGGCGAGCTGTCAGCTTTTTGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCacac                                                                                                                                   <  2:164238/132‑1 (MQ=255)

gcgcGTTACTGGAGGCGTTGCCTGAACCTGTGCTCTCTGTCGATATGAAAAGCAAAGTGGATATGGCGAACCCGGCGAGCTGTCAGCTTTTTGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCacac                                                                                                                                   >  1:164238/1‑132 (MQ=255)

   cgTTACTGGAGGCGTTGCCTGAACCTGTGCTCTCTGTCGATATGAAAAGCAAAGTGGATATGGCGAACCCGGCGAGCTGTCAGCTTTTTGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTaa                                                                                                                         <  2:985350/139‑1 (MQ=255)

               cGTTGCCTGAACCTGTGCTCTCTGTCGATATGAAAAGCAAAGTGGATATGGCGAACCCGGCGAGCTGTCAGCTTTTTGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTaa                                                                                                                         <  1:1470641/127‑1 (MQ=255)

               cGTTGCCTGAACCTGTGCTCTCTGTCGATATGAAAAGCAAAGTGGATATGGCGAACCCGGCGAGCTGTCAGCTTTTTGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTaa                                                                                                                         >  2:1470641/1‑127 (MQ=255)

                gTTGCCTGAACCTGTGCTCTCTGTCGATATGAAAAGCAAAGTGGATATGGCGAACCCGGCGAGCTGTCAGCTTTTTGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAAtttt                                                                                                            >  1:457721/1‑139 (MQ=255)

                      tGAACCTGTGCTCTCTGTCGATATGAAAAGCAAAGTGGATATGGCGAACCCGGCGAGCTGTCAGCTTTTTGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGt                                                                                                      <  1:238219/139‑1 (MQ=255)

                                        cGATATGAAAAGCAAAGTGGATATGGCGAACCCGGCGAGCTGTCAGCTTTTT‑GGCAAAAATTGGATCGCCTGCGCCACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGc                                                                                   >  1:956989/1‑139 (MQ=255)

                                                       aGTGGATATGGTGAACCCGGCGAGCTGTCAGCTTTTTGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGATTCGCATAAc                                                                     >  1:170540/1‑139 (MQ=255)

                                                                 gCGAACCCGGCGAGCTGTCAGCTTTTTGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGAtt                                                                             >  1:1235870/1‑121 (MQ=255)

                                                                 gCGAACCCGGCGAGCTGTCAGCTTTTTGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGAtt                                                                             <  2:1235870/121‑1 (MQ=255)

                                                                    aaCCCGGCGAGCTGTCAGCTTTTTGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTAACGGATTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGATTCGCATAACGAGCATGTCGtta                                                        >  2:1131568/1‑139 (MQ=255)

                                                                     aCCCGGCGAGCTGTCAGCTTTTTGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTgg                                                                                                   >  1:683443/1‑95 (MQ=255)

                                                                     aCCCGGCGAGCTGTCAGCTTTTTGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTgg                                                                                                   <  2:683443/95‑1 (MQ=255)

                                                                          gCGAGCTGTCAGCTTTTTGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGa                                                                               <  1:360245/110‑1 (MQ=255)

                                                                          gCGAGCTGTCAGCTTTTTGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGa                                                                               >  2:360245/1‑110 (MQ=255)

                                                                                 gTCAGCTTTTTGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACg                                                                                                       <  1:1828145/79‑1 (MQ=255)

                                                                                 gTCAGCTTTTTGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACg                                                                                                       >  2:1828145/1‑79 (MQ=255)

                                                                                         tttGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGATTCGCATAACGAGCATGTCGTTATTAATGGGCAGAATTTCCTGa                                   >  2:1620911/1‑139 (MQ=255)

                                                                                           tGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGATTCGCATAACGAGCATGTCGTTATTAATGGGCAGAATTTCCTGATg                                 <  2:457721/139‑1 (MQ=255)

                                                                                            gggCAAAAATTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGATTCGCATAACGAGCa                                                                <  1:1773130/107‑1 (MQ=255)

                                                                                            gggCAAAAATTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGATTCGCATAACGAGCa                                                                >  2:1773130/1‑107 (MQ=255)

                                                                                                    aTTGGATCGCCTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGATTCGCATAACGAGCATGTCGTTATTAATGGGCAGAATTTCCTGATGGAGATTACg                        <  1:1620911/139‑1 (MQ=255)

                                                                                                      tGGATCGCCTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGATTCGCATAACGAGCATGTCGTTATTAATGGGCAGAATTTCCTGATGGAGATTACGcc                      <  2:956989/139‑1 (MQ=255)

                                                                                                             ccTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGATTCGCATAACGAGCAt                                                               <  1:1740791/91‑1 (MQ=255)

                                                                                                             ccTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGATTCGCATAACGAGCAt                                                               >  2:1740791/1‑91 (MQ=255)

                                                                                                             ccTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGATTCGCATAACGAGCATGTCGTTATTAATGGGCAGAATTTCCTGATGGAGATTACGCCTGTTTAt               >  1:654591/1‑139 (MQ=255)

                                                                                                              cTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAAACGc                                                                                   >  2:1008406/1‑70 (MQ=255)

                                                                                                              cTGCGCAACCATACCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAAACGc                                                                                   <  1:1008406/70‑1 (MQ=255)

                                                                                                                          aCCGCCACACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGATTCGCATAACGAGCATGTCGTTATTAATGGGCAGAATTTCCTGATGGAGATTACGCCTGTTTATCTTCAGGATGaaa  <  2:170540/139‑1 (MQ=255)

                                                                                                                           ccgccaCACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGAtt                                                                             >  2:793075/1‑63 (MQ=255)

                                                                                                                           ccgccaCACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGAtt                                                                             <  1:793075/63‑1 (MQ=255)

GCGCGTTACTGGAGGCGTTGCCTGAACCTGTGCTCTCTGTCGATATGAAAAGCAAAGTGGATATGGCGAACCCGGCGAGCTGTCAGCTTTTTGGGCAAAAATTGGATCGCCTGCGCAACCATACCGCCGCACAATTGATTAACGGCTTTAATTTTTTACGTTGGCTGGAAAGCGAACCGCAAGATTCGCATAACGAGCATGTCGTTATTAATGGGCAGAATTTCCTGATGGAGATTACGCCTGTTTATCTTCAGGATGAAA  >  NC_000913/1386967‑1387227

Alignment Legend
Aligned base mismatch/match (shaded by quality score): `ATCG/ATCG` `< 3 ≤` `ATCG/ATCG` `< 27 ≤` `ATCG/ATCG` `< 35 ≤` `ATCG/ATCG` `< 39 ≤` `ATCG/ATCG` `< 40 ≤` `ATCG/ATCG`
Unaligned base: `atcg` Masked matching base: `atcg` Alignment gap: `‑` Deleted base: `‑`

GATK/CNVnator alignment

N/A